R Observatory: Metrics for ddpcr version 1.16.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

ddpcr

1.16.0Package record

Analysis and Visualization of Droplet Digital PCR in R and on the Web

2packages dependsuggested by 2

9.7Kdownloads / year

54.9%test coverage

11/13flavors OK

Overview

About

Maintained by Dean AttaliCRAN page ↗GitHub ↗Website ↗Issues ↗

An interface to explore, analyze, and visualize droplet digital PCR (ddPCR) data in R. This is the first non-proprietary software for analyzing two-channel ddPCR data. An interactive tool was also created and is available online to facilitate this analysis for anyone who is not comfortable with using R.

Changes in 1.16.0

Some versions of QuantaSoft add a few lines at the top of amplitude data files, this is now supported (#24)
Refactor all old dplyr code that used outdated tidy evaluation (#27)

From NEWS.md in the release

Install

R (CRAN)pak (dev)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("ddpcr", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("daattali/ddpcr")

Development version from daattali/ddpcr. Installs pak first if it is not already available.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-ddpcr

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-ddpcr

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-ddpcr

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

2NOTE11OK

Check messages

NOTEdependencies in R coder-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Namespace in Imports field not imported from:
  ‘shinydisconnect’
All declared Imports should be used.

CRAN check page ↗

Slowest check: 6.6 min · r-devel-windows-x86_64

Status changes

NOTE11 OK, 2 NOTE2026-06-09
ERROR10 OK, 2 NOTE, 1 ERROR2026-06-08
NOTE12 OK, 2 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.16.0

READMEYes · 6,042 wordsVignettesYes · 4 · dynamicNEWSYes · 100% structured · mentions 1.16.0Citation fileNoWebsiteYes

Help pages: 151 (112 internal)includes a package overview page
Examples that run: 45%33 run in a plain check · 41 never run
Exported functions with examples: 59%
Documented parameters: 65%
Return-value docs: 49%
Help pages citing references: 0%

Vignettes (4)

Algorithms in ddpcr analysis HTML
Extending ddpcr by adding new plate types HTML
Implementation technical details HTML
Package ddpcr HTML

How these are measured

Downloads

9.7K

CRAN downloads in the past year

Rank #4,371 · ~26/day · ~806/mo

Releases R versions

Daily download trend is not available in this view yet.

74930 days

1.9K90 days

9.7K1 year

Compare downloads with other packages →

Also on240 r2u12 autocran2.3K conda_forge

How downloads are counted

Repository

daattali/ddpcr ↗Account: daattali

66Stars

32Forks

0Open issues

0Open PRs

7Releases

356Commits

7Commit identities

356 commits · Last activity 2026-01-14 · +1.5% stars, 30d

Responsiveness

How these are sampled

PRs merged (all time): 85%
Median days to close, 50 most recently updated closed issues: 13
Median days to close, 50 most recently updated closed PRs: 3

Stars over time

2025-08-24 · 622026-10-10 · 66

How these are measured

PracticesBeta

5 development-tooling and community-health practices detected across 3 families in the upstream repository

Checks run against github.com/daattali/ddpcr on 2026-10-11.

Continuous integration (2)

GitHub ActionsR CMD check workflow

The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel

Governance and community (2)

Funding

Funding links: GitHub Sponsors

The repository owner accepts GitHub Sponsors

CRAN release process (1)

cran-comments.md

How this is detected·Detection ruleset v3 (2026-09-26)

Dependencies

Declared dependencies

17 external dependencies (excludes base and recommended)

Installing ddpcr adds 88 packages (48 with compiled code, 76 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, data.table 5.7 MB.

Depends (1)

R >= 3.1.0

Imports (12)

DT dplyr ggplot2 magrittr mixtools plyr readr (>= 0.1.0)shiny shinydisconnect shinyjs tibble rlang

LinkingTo (0)

none

Suggests (9)

ggExtragraphicsgridgridExtra (>= 2.0.0)knitr rmarkdownstatstestthatutils

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

2direct

1indirect

Imports 2

Suggested by 2

Depends, Imports or LinkingTo, most downloaded first

easyEWAS EFAfactors

Suggests, most downloaded first

RRphylo RRmorph

How these are counted

Code & Tests

People & History

People (1)

Dean Attali

Author, Maintainer since 1.0.1 (2016)

Releases (16)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
1.16.0Latest
record
2026-01-14 · current release · diff ↗
1.15.2
record
2025-11-08 · diff ↗
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
1.15.1
record
2023-04-03 · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
1.15
record
2020-06-02 · diff ↗
R
R 4.0.0 released · 2020-04-24
1.14
record
2020-03-23 · diff ↗
1.13
record
2020-02-28 · diff ↗
1.12
record
2020-01-13 · diff ↗
R
R 3.6.0 released · 2019-04-26
unarchivedReturned to CRAN
2019-01-03

Show 15 earlier eventsHide 15 earlier events

1.11
record
2019-01-03 · diff ↗
archivedRemoved from CRAN
2018-12-24
check problems were not corrected despite reminders
1.9
record
2018-05-27 · diff ↗
R
R 3.5.0 released · 2018-04-23
1.8
record
2017-06-24 · diff ↗
R
R 3.4.0 released · 2017-04-21
1.6
record
2016-11-12 · diff ↗
1.5
record
2016-08-03 · diff ↗
1.4
record
2016-06-25 · diff ↗
1.3
record
2016-06-05 · diff ↗ ·
added 1 export
is_dirty
R
R 3.3.0 released · 2016-05-03
archivedRemoved from CRAN
2016-05-02
check problems were not corrected despite reminders
1.1.2
record
2016-03-17 · diff ↗
1.0.1
record
2016-02-19
R
R 3.2.0 released · 2015-04-16

Package metadata

First published: 2016-02-19
Total releases: 16 / 10 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.1.0
Download size: 2.8 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("ddpcr")

Format

Attali, D. (2026). ddpcr: Analysis and Visualization of Droplet Digital PCR in R and on the Web (Version 1.16.0) [Computer software]. https://doi.org/10.32614/CRAN.package.ddpcr

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for ddpcr version 1.16.0 [Data set]. HJJB, LLC. Data release v2026-10-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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